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So - I'm trying to generate SV frequencies from long read data (ONT) aligned with a split-read aligner (BWA MEM) using SVtyper, but I keep getting an error:
Error:
Traceback (most recent call last):
…
timp0 updated
4 years ago
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Hi there,
We would like to process vcf outputs from the caller Delly with SvAnna, if possible. Below is a subset of the errors we encounter:
_____ ___
/ ___/_ __/ …
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I was wondering if it could make sense for `cnvkit` to add derived biomarkers such as HRD (integrating loss of heterozygosity (LOH), telomeric-allelic imbalance (TAI), and large-scale state transition…
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crossbeam-channel appears to use pure spinlocks (which never block in the kernel), from userspace, which is a bad idea. Looking at the behavior with `strace`, it appears to be `sched_yield`ing in a lo…
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Hi,
I tried using your tool which runs perfectly, but none of my SVs are lifted.
I'm trying to lift SVs called with NanomonSV tool from nanopore data with T2T reference genome to hg38 to annotate …
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Hi, @mnshgl0110
I am using wfmash alignment to do variant calling from the assmebly. Although `SyRI` support the PAF file since the version 1.6, but the native PAF from `wfmash` produce very diffe…
baozg updated
2 years ago
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Hello fgbio folks,
I am encountering an issue where one of the consensus sequences in a duplex pair gets clipped to the insert size while the other read doesn't get clipped. Here is an example. Fir…
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The names of these make it unclear which type of entity each is meant to refer to. Based on child terms of the latter, I'm guessing that it refers to the actual molecules and the former refers to the …
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Dear Authors,
I have analyzed structural variations in sarcoma samples using the GRIDSS-Purple-LINX suite and have some questions regarding the results from LINX.
Firstly, is the sample_id.break…
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I've written a test suite and it seg faults every couple of runs with outputs like:
```
Caused by:
process didn't exit successfully: `[REDACTED]/target/debug/deps/meeting_bot-d385ad40d7630a91` …